data.frame to be plotted. Only the fist two columns are taken into account as
x and y coordinates respectively
is.special
boolean vector of length equal to the number of rows in df2p. Specifies
which points should be highlighed seperately in a different color
dens.subsample
if the number of points exceeds this number, subsample the number of points for the
density estimation to that number. Any non-numeric value disables subsampling.
dens.special
Flag indicating whether the points of the special population should be colored
according to their density
sparse.points
Either percentage (<=1,>=0) or the absolute number
of points in the sparsely populated area that should be drawn seperately. A value of 0 means that these points
will not be drawn.
dens.n
passed on to ggplot2::stat_density2d: argument: n
add.text.cor
flag indicating whether a text token with the correlation coefficient should be included in the lower
right corner of the plot
Value
ggplot object
Author(s)
Fabian Mueller
Examples
d <- data.frame(x=rnorm(1000),y=rnorm(1000))
s <- rep(FALSE,1000)
s[sample(1:length(s),100)] <- TRUE
create.densityScatter(d,s)
Results
R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(RnBeads)
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
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clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
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as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
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match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
rbind, rownames, sapply, setdiff, sort, table, tapply, union,
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Attaching package bit
package:bit (c) 2008-2012 Jens Oehlschlaegel (GPL-2)
creators: bit bitwhich
coercion: as.logical as.integer as.bit as.bitwhich which
operator: ! & | xor != ==
querying: print length any all min max range sum summary
bit access: length<- [ [<- [[ [[<-
for more help type ?bit
Attaching package: 'bit'
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Attaching package ff
- getOption("fftempdir")=="/tmp/RtmplE8WZy"
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- getOption("fffinonexit")==TRUE
- getOption("ffpagesize")==65536
- getOption("ffcaching")=="mmnoflush" -- consider "ffeachflush" if your system stalls on large writes
- getOption("ffbatchbytes")==16777216 -- consider a different value for tuning your system
- getOption("ffmaxbytes")==536870912 -- consider a different value for tuning your system
Attaching package: 'ff'
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Loading required package: fields
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Loading required package: grid
Spam version 1.3-0 (2015-10-24) is loaded.
Type 'help( Spam)' or 'demo( spam)' for a short introduction
and overview of this package.
Help for individual functions is also obtained by adding the
suffix '.spam' to the function name, e.g. 'help( chol.spam)'.
Attaching package: 'spam'
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Loading required package: maps
# maps v3.1: updated 'world': all lakes moved to separate new #
# 'lakes' database. Type '?world' or 'news(package="maps")'. #
Attaching package: 'maps'
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Loading required package: ggplot2
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Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
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Attaching package: 'Biobase'
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Setting options('GEOquery.inmemory.gpl'=FALSE)
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Warning message:
replacing previous import 'gridExtra::combine' by 'methylumi::combine' when loading 'RnBeads'
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/RnBeads/create.densityScatter.Rd_%03d_medium.png", width=480, height=480)
> ### Name: create.densityScatter
> ### Title: create.densityScatter
> ### Aliases: create.densityScatter
>
> ### ** Examples
>
> ## No test:
> d <- data.frame(x=rnorm(1000),y=rnorm(1000))
> s <- rep(FALSE,1000)
> s[sample(1:length(s),100)] <- TRUE
> create.densityScatter(d,s)
> ## End(No test)
>
>
>
>
>
> dev.off()
null device
1
>